The Annals of Applied Statistics

Spatial capture–recapture with partial identity: An application to camera traps

Ben C. Augustine, J. Andrew Royle, Marcella J. Kelly, Christopher B. Satter, Robert S. Alonso, Erin E. Boydston, and Kevin R. Crooks

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Abstract

Camera trapping surveys frequently capture individuals whose identity is only known from a single flank. The most widely used methods for incorporating these partial identity individuals into density analyses discard some of the partial identity capture histories, reducing precision, and, while not previously recognized, introducing bias. Here, we present the spatial partial identity model (SPIM), which uses the spatial location where partial identity samples are captured to probabilistically resolve their complete identities, allowing all partial identity samples to be used in the analysis. We show that the SPIM outperforms other analytical alternatives. We then apply the SPIM to an ocelot data set collected on a trapping array with double-camera stations and a bobcat data set collected on a trapping array with single-camera stations. The SPIM improves inference in both cases and, in the ocelot example, individual sex is determined from photographs used to further resolve partial identities—one of which is resolved to near certainty. The SPIM opens the door for the investigation of trapping designs that deviate from the standard two camera design, the combination of other data types between which identities cannot be deterministically linked, and can be extended to the problem of partial genotypes.

Article information

Source
Ann. Appl. Stat. Volume 12, Number 1 (2018), 67-95.

Dates
Received: June 2017
Revised: August 2017
First available in Project Euclid: 9 March 2018

Permanent link to this document
https://projecteuclid.org/euclid.aoas/1520564465

Digital Object Identifier
doi:10.1214/17-AOAS1091

Keywords
Spatial capture–recapture partial identity camera trapping multiple marks

Citation

Augustine, Ben C.; Royle, J. Andrew; Kelly, Marcella J.; Satter, Christopher B.; Alonso, Robert S.; Boydston, Erin E.; Crooks, Kevin R. Spatial capture–recapture with partial identity: An application to camera traps. Ann. Appl. Stat. 12 (2018), no. 1, 67--95. doi:10.1214/17-AOAS1091. https://projecteuclid.org/euclid.aoas/1520564465


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Supplemental materials

  • Supplement A: Simulation tables for Appendix B. We provide a table containing the full simulation results that are graphically summarized in Appendix B.
  • Supplement B: Comparison of spatial partial identity model to the non-spatial partial identity model. We provide a comparison of the spatial partial identity model to it’s non-spatial counterpart via simulation studies.